Query 041890
Match_columns 375
No_of_seqs 165 out of 1025
Neff 7.7
Searched_HMMs 29240
Date Mon Mar 25 20:17:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041890.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/041890hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1wj2_A Probable WRKY transcrip 93.7 0.16 5.3E-06 37.7 6.1 41 15-55 37-77 (78)
2 2ayd_A WRKY transcription fact 93.5 0.14 4.7E-06 37.8 5.5 41 15-55 34-74 (76)
3 2rpr_A Flywch-type zinc finger 67.0 9.4 0.00032 28.3 5.2 46 3-55 26-74 (87)
4 1q1v_A DEK protein; winged-hel 35.6 1E+02 0.0034 21.9 6.0 39 59-97 10-51 (70)
5 2kw0_A CCMH protein; oxidoredu 27.3 34 0.0012 25.7 2.3 36 62-97 37-76 (90)
6 2hl7_A Cytochrome C-type bioge 23.0 40 0.0014 25.0 2.0 36 62-97 40-79 (84)
7 2p5k_A Arginine repressor; DNA 17.4 1.4E+02 0.0048 19.5 3.8 35 70-104 10-46 (64)
8 1k78_A Paired box protein PAX5 14.8 1.9E+02 0.0064 22.7 4.6 24 70-93 99-122 (149)
9 1dd4_C 50S ribosomal protein L 14.6 90 0.0031 19.6 1.9 18 80-97 16-33 (40)
10 2k27_A Paired box protein PAX- 13.2 2.4E+02 0.0082 22.4 4.8 26 68-93 90-115 (159)
No 1
>1wj2_A Probable WRKY transcription factor 4; DNA-binding domain, zinc-binding, structural genomics; NMR {Arabidopsis thaliana} SCOP: g.79.1.1 PDB: 2lex_A*
Probab=93.70 E-value=0.16 Score=37.66 Aligned_cols=41 Identities=10% Similarity=0.129 Sum_probs=35.2
Q ss_pred eEEEEEeecCCCceEEEEEEecCCCeEEEEEeCCCcccCCC
Q 041890 15 TFINCECSDLMCDWKVSAAKVRKSNVFVLKEITPNHTCKRR 55 (375)
Q Consensus 15 ~r~~~~C~~~~C~w~v~a~~~~~~~~~~I~~~~~~HtC~~~ 55 (375)
-|-..+|+..+|+.+-.+.+...+....++++.++|||+..
T Consensus 37 PRsYYrCt~~gC~a~K~Ver~~~d~~~~~~tY~G~H~H~~p 77 (78)
T 1wj2_A 37 PRSYYKCTTPGCGVRKHVERAATDPKAVVTTYEGKHNHDLP 77 (78)
T ss_dssp CEEEEEEECSSCEEEEEEEEETTTTSEEEEEEESCCSSCCC
T ss_pred eeEEeecCcCCCCcEeeEEEEcCCCCEEEEEEeeEcCCCCC
Confidence 46678999999999999998877777778899999999753
No 2
>2ayd_A WRKY transcription factor 1; beta strands, zinc finger; 1.60A {Arabidopsis thaliana}
Probab=93.53 E-value=0.14 Score=37.77 Aligned_cols=41 Identities=12% Similarity=0.169 Sum_probs=35.1
Q ss_pred eEEEEEeecCCCceEEEEEEecCCCeEEEEEeCCCcccCCC
Q 041890 15 TFINCECSDLMCDWKVSAAKVRKSNVFVLKEITPNHTCKRR 55 (375)
Q Consensus 15 ~r~~~~C~~~~C~w~v~a~~~~~~~~~~I~~~~~~HtC~~~ 55 (375)
-|-..+|+..+|+.+-.+.+...+....++++.++|||+..
T Consensus 34 PRsYYrCt~~gC~a~K~Ver~~~d~~~~~~tY~G~H~H~~p 74 (76)
T 2ayd_A 34 PRSYYRCSSPGCPVKKHVERSSHDTKLLITTYEGKHDHDMP 74 (76)
T ss_dssp CEEEEEECSTTCCCEEEEEECSSSTTEEEEEEESCCSSCCC
T ss_pred ceeEeEcCCCCCCceeeEEEECCCCCEEEEEEccCcCCCCC
Confidence 46678999999999999998877777888899999999753
No 3
>2rpr_A Flywch-type zinc finger-containing protein 1; flywch domain, alternative splicing, DNA-binding, metal- binding, nucleus, metal binding protein; NMR {Homo sapiens}
Probab=66.98 E-value=9.4 Score=28.31 Aligned_cols=46 Identities=11% Similarity=0.186 Sum_probs=33.9
Q ss_pred ccEEEEEEeecCeEEEEEeec---CCCceEEEEEEecCCCeEEEEEeCCCcccCCC
Q 041890 3 DGIKLYVMENTSTFINCECSD---LMCDWKVSAAKVRKSNVFVLKEITPNHTCKRR 55 (375)
Q Consensus 3 ~~~~~~~~rs~~~r~~~~C~~---~~C~w~v~a~~~~~~~~~~I~~~~~~HtC~~~ 55 (375)
+++.|...+....+..-+|.. .+|+.+|.... +. | ....+|||++.
T Consensus 26 ~Gy~Y~~~~~~~~~~yWrC~~~~~~kCrARi~T~~----~~--~-~~~~~HnH~p~ 74 (87)
T 2rpr_A 26 ESFLYRKEKAAGEKVYWMCRDQARLGCRSRAITQG----HR--I-MVMRSHCHQPD 74 (87)
T ss_dssp TTEEEEEEEECSSCEEEEEGGGTTSCCCCEEEEET----TE--E-EECSCCSSCCC
T ss_pred CCEEEEeeecCCCcEEEEecCCCCCCCCEEEEEcC----CC--E-ECCCCcCCCCc
Confidence 567787777777788899987 48999988754 22 2 24678999875
No 4
>1q1v_A DEK protein; winged-helix motif, DNA binding protein; NMR {Homo sapiens} SCOP: a.159.4.1
Probab=35.57 E-value=1e+02 Score=21.87 Aligned_cols=39 Identities=10% Similarity=0.092 Sum_probs=33.1
Q ss_pred cccchhhHHHHHhhhhhc-C-CCCCHHHHHHHHHHHh-CCCh
Q 041890 59 FPLRTKWNAEKFLHLWVQ-N-PNIDFHILRYEIETCS-GFKY 97 (375)
Q Consensus 59 ~~~ss~~ia~~~~~~l~~-~-~~~~~~~i~~~l~~~~-gvs~ 97 (375)
...|-..|...++++|+. + .+++.+.|...|.+.| |+..
T Consensus 10 ~~Psd~ei~~~I~~IL~~aDL~tvT~K~VR~~Le~~~pg~dL 51 (70)
T 1q1v_A 10 KPPTDEELKETIKKLLASANLEEVTMKQICKKVYENYPTYDL 51 (70)
T ss_dssp CCCCHHHHHHHHHHHHTTSCGGGCCHHHHHHHHHHHCSSSCC
T ss_pred CCcCHHHHHHHHHHHHHhCCHHHHhHHHHHHHHHHHccCCCC
Confidence 467888899999999986 4 6799999999999999 8444
No 5
>2kw0_A CCMH protein; oxidoreductase, cytochrome C maturation; NMR {Escherichia coli}
Probab=27.34 E-value=34 Score=25.74 Aligned_cols=36 Identities=8% Similarity=-0.026 Sum_probs=27.8
Q ss_pred chhhHHHHHhhhhhc--CCCCCHHHHHHHHHHHhC--CCh
Q 041890 62 RTKWNAEKFLHLWVQ--NPNIDFHILRYEIETCSG--FKY 97 (375)
Q Consensus 62 ss~~ia~~~~~~l~~--~~~~~~~~i~~~l~~~~g--vs~ 97 (375)
|..-||.-++..|+. ..+.+..+|.+.+...|| |.|
T Consensus 37 SnA~iA~dlR~~Vre~l~~G~Sd~eI~~~mv~RYGdfVly 76 (90)
T 2kw0_A 37 SNSMIATDLRQKVYELMQEGKSKKEIVDYMVARYGNFVTY 76 (90)
T ss_dssp CCCHHHHHHHHHHHHHHHHTCCHHHHHHHHHHHHTTTCBC
T ss_pred cCcHHHHHHHHHHHHHHHcCCCHHHHHHHHHHhcCCeEEe
Confidence 445677766666654 466789999999999999 777
No 6
>2hl7_A Cytochrome C-type biogenesis protein CCMH; three-helices bundle, oxidoreductase; HET: PG4; 1.70A {Pseudomonas aeruginosa}
Probab=22.96 E-value=40 Score=24.97 Aligned_cols=36 Identities=8% Similarity=-0.088 Sum_probs=27.1
Q ss_pred chhhHHHHHhhhhhc--CCCCCHHHHHHHHHHHhC--CCh
Q 041890 62 RTKWNAEKFLHLWVQ--NPNIDFHILRYEIETCSG--FKY 97 (375)
Q Consensus 62 ss~~ia~~~~~~l~~--~~~~~~~~i~~~l~~~~g--vs~ 97 (375)
|..-||.-++..|+. ..+.+..+|.+.+...|| |-|
T Consensus 40 Sna~iA~dlR~~V~~~l~~G~sd~eI~~~~v~RYG~fVly 79 (84)
T 2hl7_A 40 SNAPIAADLRKQIYGQLQQGKSDGEIVDYMVARYGDFVRY 79 (84)
T ss_dssp CCSHHHHHHHHHHHHHHHHTCCHHHHHHHHHHHHTTTCEE
T ss_pred cCcHHHHHHHHHHHHHHHcCCCHHHHHHHHHHhcCCeeee
Confidence 444677766666654 456789999999999999 766
No 7
>2p5k_A Arginine repressor; DNA-binding domain, winged helix-turn-helix (WHTH), DNA binding protein; 1.00A {Bacillus subtilis} SCOP: a.4.5.3 PDB: 2p5l_C*
Probab=17.35 E-value=1.4e+02 Score=19.54 Aligned_cols=35 Identities=6% Similarity=-0.201 Sum_probs=25.5
Q ss_pred HhhhhhcCCCCCHHHHHHHHHHHhC-CCh-hhhHHHH
Q 041890 70 FLHLWVQNPNIDFHILRYEIETCSG-FKY-PTWKLEA 104 (375)
Q Consensus 70 ~~~~l~~~~~~~~~~i~~~l~~~~g-vs~-~~~rak~ 104 (375)
+...+..+..+++.+|.+.+.+..- ||. +++|.-+
T Consensus 10 i~~ll~~~~~~t~~el~~~l~~~~~~vs~~Tv~R~L~ 46 (64)
T 2p5k_A 10 IREIITSNEIETQDELVDMLKQDGYKVTQATVSRDIK 46 (64)
T ss_dssp HHHHHHHSCCCSHHHHHHHHHHTTCCCCHHHHHHHHH
T ss_pred HHHHHHcCCCCCHHHHHHHHHHhCCCcCHHHHHHHHH
Confidence 3445566778999999999977643 888 8877544
No 8
>1k78_A Paired box protein PAX5; paired domain, ETS domain, transcription factor, transcription/DNA complex; 2.25A {Homo sapiens} SCOP: a.4.1.5 a.4.1.5 PDB: 1mdm_A 6pax_A
Probab=14.79 E-value=1.9e+02 Score=22.71 Aligned_cols=24 Identities=17% Similarity=0.058 Sum_probs=13.6
Q ss_pred HhhhhhcCCCCCHHHHHHHHHHHh
Q 041890 70 FLHLWVQNPNIDFHILRYEIETCS 93 (375)
Q Consensus 70 ~~~~l~~~~~~~~~~i~~~l~~~~ 93 (375)
+.+.+..+|.+++.+|.+.+.++.
T Consensus 99 I~~~~~~~~~~s~~~i~~~l~~~~ 122 (149)
T 1k78_A 99 IAEYKRQNPTMFAWEIRDRLLAER 122 (149)
T ss_dssp HHHHHHHCTTCCHHHHHHHHHHTT
T ss_pred HHHHHHhCcchhHHHHHHHHHHhc
Confidence 444445566666666666665543
No 9
>1dd4_C 50S ribosomal protein L7/L12; dimer formation, flexibility, hinge region, four-helix- bundle, five-helix- bundle, alpha-beta structure; HET: TBR; 2.40A {Thermotoga maritima} SCOP: a.108.1.1
Probab=14.57 E-value=90 Score=19.62 Aligned_cols=18 Identities=17% Similarity=0.111 Sum_probs=13.9
Q ss_pred CCHHHHHHHHHHHhCCCh
Q 041890 80 IDFHILRYEIETCSGFKY 97 (375)
Q Consensus 80 ~~~~~i~~~l~~~~gvs~ 97 (375)
+...++.+.++++|||+-
T Consensus 16 lE~~eLvk~leekfGVsa 33 (40)
T 1dd4_C 16 SELAELVKKLEDKFGVTA 33 (40)
T ss_dssp HHHHHHHHHHHHHTCCCS
T ss_pred HHHHHHHHHHHHHHCCCc
Confidence 346788889999999764
No 10
>2k27_A Paired box protein PAX-8; paired domain, solution structure, triple frequency, 3D NMR, induced FIT, alternative splicing, developmental protein; NMR {Homo sapiens}
Probab=13.19 E-value=2.4e+02 Score=22.41 Aligned_cols=26 Identities=23% Similarity=0.107 Sum_probs=17.8
Q ss_pred HHHhhhhhcCCCCCHHHHHHHHHHHh
Q 041890 68 EKFLHLWVQNPNIDFHILRYEIETCS 93 (375)
Q Consensus 68 ~~~~~~l~~~~~~~~~~i~~~l~~~~ 93 (375)
+.+.+.+..+|.+++.+|.+.+.++.
T Consensus 90 ~~I~~~~~~~~~~s~~~i~~~l~~~~ 115 (159)
T 2k27_A 90 EKIGDYKRQNPTMFAWEIRDRLLAEG 115 (159)
T ss_dssp HHHHHHHHHCSSSCHHHHHHHHHHHT
T ss_pred HHHHHHHHHCccchHHHHHHHHHHhc
Confidence 34555566678888888888776554
Done!